3GDZ | pdb_00003gdz

Crystal structure of arginyl-tRNA synthetase from Klebsiella pneumoniae subsp. pneumoniae

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	IRS	e3gdzD1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: IRS	ECOD (v294.1)
C	IRS	e3gdzC1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: IRS	ECOD (v294.1)
B	IRS	e3gdzB1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: IRS	ECOD (v294.1)
A	Ring_hydroxyl_B	e3gdzA1	A: a/b three-layered sandwiches	X: UBC-like	H: UBC-like	T: UBC-like	F: Ring_hydroxyl_B	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.30.1360.70	Alpha Beta	2-Layer Sandwich	Gyrase A	domain 2	CATH (4.3.0)
C	3.30.1360.70	Alpha Beta	2-Layer Sandwich	Gyrase A	domain 2	CATH (4.3.0)
B	3.30.1360.70	Alpha Beta	2-Layer Sandwich	Gyrase A	domain 2	CATH (4.3.0)
A	3.30.1360.70	Alpha Beta	2-Layer Sandwich	Gyrase A	domain 2	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Arginyl-tRNA synthetase	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding ligase activity, forming carbon-oxygen bonds aminoacyl-tRNA ligase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid catalytic activity, acting on a tRNA arginine-tRNA ligase activity catalytic activity ligase activity	amino acid activation tRNA aminoacylation RNA metabolic process primary metabolic process amino acid metabolic process translation gene expression tRNA aminoacylation for protein translation protein biosynthetic process macromolecule biosynthetic process arginyl-tRNA aminoacylation nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process biosynthetic process amino acid activation tRNA aminoacylation RNA metabolic process primary metabolic process amino acid metabolic process translation gene expression tRNA aminoacylation for protein translation protein biosynthetic process macromolecule biosynthetic process arginyl-tRNA aminoacylation nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process biosynthetic process metabolic process cellular process macromolecule metabolic process protein metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036695	Arginyl tRNA synthetase N-terminal domain superfamily	Homologous Superfamily
A, B, C, D	IPR005148	Arginyl tRNA synthetase N-terminal domain	Domain
A, B, C, D	IPR001412	Aminoacyl-tRNA synthetase, class I, conserved site	Conserved Site
A, B, C, D	IPR009080	Aminoacyl-tRNA synthetase, class Ia, anticodon-binding	Homologous Superfamily
A, B, C, D	IPR035684	Arginyl-tRNA synthetase, catalytic core domain	Domain
A, B, C, D	IPR001278	Arginine-tRNA ligase	Family
A, B, C, D	IPR014729	Rossmann-like alpha/beta/alpha sandwich fold	Homologous Superfamily
A, B, C, D	IPR008909	DALR anticodon binding	Domain

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.